Proteome Profiling

Service Description

Proteome profiling analysis refers to the analysis of an entire proteome from complex samples like complete cells, tissues and body fluids. It is most often used to identify as many peptides and proteins as possible. Proteome profiling analysis based on mass spectrometry (MS) can provide reference information for high-throughput quantitative proteomics and protein modification analysis.

Service Specification

  • Sample Preparation and Services

    • Digestion performed using sequencing-grade trypsin
    • Off-line sample fractionation using HPLC technology
    • Each fraction analyzed using nano-flow LC-MS/MS
    • Peptide Spectral Match (PSM) data utilized for constructing proteomic profile

  • Quality Standard

    • Summary includes all methods and data analysis
    • Reports provided in Excel or PDF format, RAW files available upon request

  • Turn Around Time

    • Typical 4-5 weeks from sample QC acceptance to data report delivery

Proteome Profiling Project Workflow

Proteome profiling is a cost effective, high value solution for monitoring hundreds-to-thousands of proteins simultaneously. We perform sample digestion using sequencing-grade trypsin or alternative proteolytic method, and then trypsin-digested peptide samples are analyzed using nano-flow LC-MS/MS. The spectral counting method provides information on protein relative abundances. Besides, our HPLC sample fractionation systems are highly recommended for complex sample types to reduce sample complexity and maximize protein sequence coverage and detection dynamic range.

SAMPLE PREPARATION

LC FRACTIONATION

LC-MS/MS ANALYSIS

DATA ANALYSIS

Specifications

  • Digestion performed using sequencing-grade trypsin
  • Off-line sample fractionation using HPLC technology
  • Each fraction analyzed using nano-flow LC-MS/MS
  • Peptide Spectral Match (PSM) data utilized for constructing proteomic profile

Sample Requirements

SAMPLE TYPE AMOUNT AND CONCENTRATION MINIMUM SAMPLE VOLUME
Protein sample in liquid solution or in gel band/spot Recommended 100 µg for each enzyme: 2 µg/µL 100 µL for each enzyme
Protein sample in liquid solution or in gel band/spot Minimum Required 10 µg for each enzyme: 1 µg/µL 10 µL for each enzyme

Advanced Bioinformatics Analysis

  • Data analysis and validation performed with Mascot
  • GO (Gene ontology) category analysis
  • COG (Cluster of Orthologous Groups of proteins) category analysis
  • Pathway analysis

Proteome Profiling Service Overview

Unique DNBSEQ™ Sequencing Technology

BGI’s RNA Sequencing services are typically executed with proprietary DNBSEQ™ sequencing technology platforms, for great sequencing data at some of the lowest costs in the industry. DNBSEQ™ offers advantages in terms of lower amplification error rates and much lower duplication rates. In addition, studies have shown the lower index hopping rate in DNBSEQ™ platforms.